Gene-Associated Single Nucleotide Polymorphism Discovery in White Clover (\u3cem\u3eT. Repens\u3c/em\u3e L.)

Single nucleotide polymorphism (SNP) discovery permits the discovery of molecular marker variation associated with functionally-defined genes. SNP markers have been developed for the temperate pasture legume crop white clover (Trifolium repens) using public and proprietary genic sequences correlated with key agronomic traits of interest

A method for extracting calibrated volatility information from the FIGAERO-HR-ToF-CIMS and its experimental application

The Filter Inlet for Gases and AEROsols (FIGAERO) is an inlet specifically designed to be coupled with the Aerodyne High-Resolution Time-of-Flight Chemical Ionization Mass Spectrometer (HR-ToF-CIMS). The FIGAERO-HR-ToF-CIMS provides simultaneous molecular information relating to both the gas- and particle-phase samples and has been used to extract vapour pressures (VPs) of the compounds desorbing from the filter whilst giving quantitative concentrations in the particle phase. However, such extraction of vapour pressures of the measured particle-phase components requires use of appropriate, well-defined, reference compounds. Vapour pressures for the homologous series of polyethylene glycols (PEG) ((H-(O-CH2CH2)n-OH) for n = 3 to n = 8), covering a range of vapour pressures (VP) (10-1 to 10-7 Pa) that are atmospherically relevant, have been shown to be reproduced well by a range of different techniques, including Knudsen Effusion Mass Spectrometry (KEMS). This is the first homologous series of compounds for which a number of vapour pressure measurement techniques have been found to be in agreement, indicating the utility as a calibration standard, providing an ideal set of benchmark compounds for accurate characterization of the FIGAERO for extracting vapour pressure of measured compounds in chambers and the real atmosphere. To demonstrate this, single-component and mixture vapour pressure measurements are made using two FIGAERO-HR-ToF-CIMS instruments based on a new calibration determined from the PEG series. VP values extracted from both instruments agree well with those measured by KEMS and reported values from literature, validating this approach for extracting VP data from the FIGAERO. This method is then applied to chamber measurements, and the vapour pressures of known products are estimated

Urban tracer dispersion and infiltration into buildings over a 2-km scale

Field experiments were undertaken in the summer of 2015 in Manchester, UK, to investigate the dispersion behaviour and infiltration into buildings of gas-phase pollutants over horizontal distances of 1–5 km. Inert cyclic perfluorocarbon tracers were released for 15 min at either one or three release points and samples taken in locations indoors and outdoors up to 2 km downwind. Background measurements of these cyclic perfluorocarbons range between 5.6 and 12.6 parts per quadrillion (ppq)

Global tropospheric halogen (Cl, Br, I) chemistry and its impact on oxidants [discussion paper]

We present an updated mechanism for tropospheric halogen (Clĝ€¯+ĝ€¯Brĝ€¯+ĝ€¯I) chemistry in the GEOS-Chem global atmospheric chemical transport model and apply it to investigate halogen radical cycling and implications for tropospheric oxidants. Improved representation of HOBr heterogeneous chemistry and its pH dependence in our simulation leads to less efficient recycling and mobilization of bromine radicals and enables the model to include mechanistic sea salt aerosol debromination without generating excessive BrO. The resulting global mean tropospheric BrO mixing ratio is 0.19ĝ€¯ppt (parts per trillion), lower than previous versions of GEOS-Chem. Model BrO shows variable consistency and biases in comparison to surface and aircraft observations in marine air, which are often near or below the detection limit. The model underestimates the daytime measurements of Cl2 and BrCl from the ATom aircraft campaign over the Pacific and Atlantic, which if correct would imply a very large missing primary source of chlorine radicals. Model IO is highest in the marine boundary layer and uniform in the free troposphere, with a global mean tropospheric mixing ratio of 0.08ĝ€¯ppt, and shows consistency with surface and aircraft observations. The modeled global mean tropospheric concentration of Cl atoms is 630ĝ€¯cm-3, contributing 0.8ĝ€¯% of the global oxidation of methane, 14ĝ€¯% of ethane, 8ĝ€¯% of propane, and 7ĝ€¯% of higher alkanes. Halogen chemistry decreases the global tropospheric burden of ozone by 11ĝ€¯%, NOx by 6ĝ€¯%, and OH by 4ĝ€¯%. Most of the ozone decrease is driven by iodine-catalyzed loss. The resulting GEOS-Chem ozone simulation is unbiased in the Southern Hemisphere but too low in the Northern Hemisphere

Effect of sea salt aerosol on tropospheric bromine chemistry

Bromine radicals influence global tropospheric chemistry by depleting ozone and by oxidizing elemental mercury and reduced sulfur species. Observations typically indicate a 50&thinsp;% depletion of sea salt aerosol (SSA) bromide relative to seawater composition, implying that SSA debromination could be the dominant global source of tropospheric bromine. However, it has been difficult to reconcile this large source with the relatively low bromine monoxide (BrO) mixing ratios observed in the marine boundary layer (MBL). Here we present a new mechanistic description of SSA debromination in the GEOS-Chem global atmospheric chemistry model with a detailed representation of halogen (Cl, Br, and I) chemistry. We show that observed levels of SSA debromination can be reproduced in a manner consistent with observed BrO mixing ratios. Bromine radical sinks from the HOBr + S(IV) heterogeneous reactions and from ocean emission of acetaldehyde are critical in moderating tropospheric BrO levels. The resulting HBr is rapidly taken up by SSA and also deposited. Observations of SSA debromination at southern midlatitudes in summer suggest that model uptake of HBr by SSA may be too fast. The model provides a successful simulation of free-tropospheric BrO in the tropics and midlatitudes in summer, where the bromine radical sink from the HOBr + S(IV) reactions is compensated for by more efficient HOBr-driven recycling in clouds compared to previous GEOS-Chem versions. Simulated BrO in the MBL is generally much higher in winter than in summer due to a combination of greater SSA emission and slower conversion of bromine radicals to HBr. An outstanding issue in the model is the overestimate of free-tropospheric BrO in extratropical winter–spring, possibly reflecting an overestimate of the HOBr∕HBr ratio under these conditions where the dominant HOBr source is hydrolysis of BrNO3.</p

Production of N2O5 and ClNO2 in summer in urban Beijing, China

The heterogeneous hydrolysis of dinitrogen pentoxide (N2O5) has a significant impact on both nocturnal particulate nitrate formation and photochemistry on the following day through the photolysis of nitryl chloride (ClNO2), yet these processes in highly polluted urban areas remain poorly understood. Here we present measurements of gas-phase N2O5 and ClNO2 by high-resolution time-of-flight chemical ionization mass spectrometer (ToF-CIMS) during summer in urban Beijing, China as part of the Air Pollution and Human Health (APHH) campaign. N2O5 and ClNO2 show large day-to-day variations with average (±1σ ) mixing ratios of 79.2±157.1 and 174.3±262.0 pptv, respectively. High reactivity of N2O5, with ., (N2O5)'1 ranging from 0.20 × 10'2 to 1.46 × 10'2 s'1, suggests active nocturnal chemistry and a large nocturnal nitrate formation potential via N2O5 heterogeneous uptake. The lifetime of N2O5, ., (N2O5), decreases rapidly with the increase in aerosol surface area, yet it varies differently as a function of relative humidity with the highest value peaking at 1/4 40 %. The N2O5 uptake coefficients estimated from the product formation rates of ClNO2 and particulate nitrate are in the range of 0.017-0.19, corresponding to direct N2O5 loss rates of 0.00044-0.0034 s'1. Further analysis indicates that the fast N2O5 loss in the nocturnal boundary layer in urban Beijing is mainly attributed to its indirect loss via NO3, for example through the reactions with volatile organic compounds and NO, while the contribution of the heterogeneous uptake of N2O5 is comparably small (7-33 %). High ClNO2 yields ranging from 0.10 to 0.35 were also observed, which might have important implications for air quality by affecting nitrate and ozone formation

Evaluation of the chemical composition of gas- And particle-phase products of aromatic oxidation

Aromatic volatile organic compounds (VOCs) are key anthropogenic pollutants emitted to the atmosphere and are important for both ozone and secondary organic aerosol (SOA) formation in urban areas. Recent studies have indicated that aromatic hydrocarbons may follow previously unknown xidation chemistry pathways, including autoxidation that can lead to the formation of highly oxidised products. In this study we evaluate the gas- and particle-phase ions measured by online mass spectrometry during the hydroxyl radical oxidation of substituted C9-aromatic isomers (1,3,5-trimethylbenzene, 1,2,4-trimethylbenzene, propylbenzene and isopropylbenzene) and a substituted polyaromatic hydrocarbon (1-methylnaphthalene) under low- and medium-NOx conditions. A time-of-flight chemical ionisation mass spectrometer (ToF-CIMS) with iodide anion ionisation was used with a filter inlet for gases and aerosols (FIGAERO) for the detection of products in the particle phase, while a Vocus protontransfer- reaction mass spectrometer (Vocus-PTR-MS) was sed for the detection of products in the gas phase. The signal of product ions observed in the mass spectra were compared or the different precursors and experimental conditions. The majority of mass spectral product signal in both the gas and particle phases comes from ions which are common to all precursors, though signal distributions are distinct for different VOCs. Gas- and particle-phase composition are distinct from one another. Ions corresponding to products contained in the near-explicit gas phase Master Chemical Mechanism (MCM version 3.3.1) are utilised as a benchmark of current scientific understanding, and a comparison of these with observations shows that the MCM is missing a range of highly oxidised products from its mechanism. In the particle phase, the bulk of the product signal from all precursors comes from ring scission ions, a large proportion of which are more oxidised than previously reported and ave undergone further oxidation to form highly oxygenated organic molecules (HOMs). Under the perturbation of OH oxidation with increased NOx , the contribution of HOM-ion signals to the particle-phase signal remains elevated for more substituted aromatic precursors. Up to 43%of product signal comes from ring-retaining ions including HOMs; this is most mportant for the more substituted aromatics. Unique products are a minor component in these systems, and many of the dominant ions have ion formulae concurrent with other systems, highlighting the challenges in utilising marker ions for SOA

Chlorine oxidation of VOCs at a semi-rural site in Beijing: significant chlorine liberation from ClNO2 and subsequent gas- and particle-phase Cl–VOC production

Nitryl chloride (ClNO2) accumulation at night acts as a significant reservoir for active chlorine and impacts the following day’s photochemistry when the chlorine atom is liberated at sunrise. Here, we report simultaneous measurements of N2O5 and a suite of inorganic halogens including ClNO2 and reactions of chloride with volatile organic compounds (Cl–VOCs) in the gas and particle phases utilising the Filter Inlet for Gas and AEROsols time-of-flight chemical ionisation mass spectrometer (FIGAERO-ToF-CIMS) during an intensive measurement campaign 40 km northwest of Beijing in May and June 2016. A maximum mixing ratio of 2900 ppt of ClNO2 was observed with a mean campaign nighttime mixing ratio of 487 ppt, appearing to have an anthropogenic source supported by correlation with SO2, CO and benzene, which often persisted at high levels after sunrise until midday. This was attributed to such high mixing ratios persisting after numerous e-folding times of the photolytic lifetime enabling the chlorine atom production to reach 2.3 105 molecules cm3 from ClNO2 alone, peaking at 09:30 LT and up to 8.4 105 molecules cm3 when including the supporting inorganic halogen measurements. Cl–VOCs were observed in the particle and gas phases for the first time at high time resolution and illustrate how the iodide ToF-CIMS can detect unique markers of chlorine atom chemistry in ambient air from both biogenic and anthropogenic sources. Their presence and abundance can be explained via time series of their measured and steady-state calculated precursors, enabling the assessment of competing OH and chlorine atom oxidation via measurements of products from both of these mechanisms and their relative contribution to secondary organic aerosol (SOA) formation